# List of top-scoring protein chains for t04-100-40-40-str2+CB_burial_14_7-scores hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1z7uA 112 9.81e-01 2cw9A 194 1.23e+00 1yj7A 171 1.79e+00 1yz7A 188 1.90e+00 1q3eA 207 3.20e+00 b.82.3.2 95669 1tmxA 293 3.58e+00 1zx4A 192 3.79e+00 1cqxA 403 3.84e+00 1cqxA a.1.1.2,b.43.4.2,c.25.1.5 15635,25667,31562 1udxA 416 4.00e+00 b.117.1.1,c.37.1.8,d.242.1.1 99228,99229,99230 1t0tV 248 4.59e+00 d.58.4.10 106229 2b7eA 59 5.24e+00 1q6hA 224 5.27e+00 d.26.1.1 95975 1ig8A 486 5.33e+00 2yhx c.55.1.3,c.55.1.3 64746,64747 1qi7A 253 5.36e+00 1qi7A d.165.1.1 42210 1dc1A 323 5.57e+00 1dc1A c.52.1.11 33321 2ahjA 206 5.94e+00 2ahjA d.149.1.1 41772 1knqA 175 6.04e+00 c.37.1.17 72786 1q6uA 245 6.22e+00 d.26.1.1 95998 1bm9A 122 6.69e+00 1bm9A a.4.5.7 16116 2d7vA 162 7.72e+00 1g5aA 628 8.24e+00 b.71.1.1,c.1.8.1 65152,65153 1yviA 149 8.39e+00 2bmoB 194 9.73e+00 1uurA 473 9.97e+00 a.47.1.1,b.2.5.5,d.93.1.1 100016,100017,100018 1f7lA 121 1.03e+01 1f7lA d.150.1.2 59666 1wpbA 172 1.06e+01 1oqyA 368 1.13e+01 a.5.2.1,a.5.2.1,a.189.1.1,d.15.1.1 93439,93440,93441,93442 2cz1A 206 1.17e+01 1bf5A 545 1.22e+01 1bg1A a.47.1.1,b.2.5.5,d.93.1.1 17766,22460,40526 2bolA 314 1.28e+01 1icrA 217 1.32e+01 1vfrA d.90.1.1 62274 1ireA 204 1.37e+01 d.149.1.1 76769 1p5zB 263 1.39e+01 c.37.1.1 87815 1x0tA 120 1.42e+01 1ab4 477 1.44e+01 1ab4 e.11.1.1 43251 1ykiA 217 1.47e+01 1josA 128 1.51e+01 d.52.7.1 84191 2cwyA 94 1.58e+01 1ytzT 107 1.60e+01 1mzbA 136 1.62e+01 a.4.5.42 91497 2trcP 217 1.71e+01 1b9yC c.47.1.6 33051 1g60A 260 1.77e+01 c.66.1.11 70151 1ugpA 203 1.81e+01 d.149.1.1 107831 1b0b 142 1.87e+01 2fal a.1.1.2 15010 1y1xA 191 1.94e+01 1c02A 166 1.95e+01 1qspA a.24.10.2 16633 1vm0A 130 2.01e+01 d.68.6.2 108873 2ezk 99 2.01e+01 2ezk a.4.1.2 16027 1ib8A 164 2.07e+01 b.38.2.1,d.52.4.1 71168,71169 1bxeA 113 2.12e+01 1bxeA d.55.1.1 38898 2ethA 154 2.20e+01 2d27A 149 2.25e+01 1uuzA 137 2.28e+01 d.233.1.1 100024 1twfK 120 2.43e+01 1louA 101 2.45e+01 1ris d.58.14.1 39323 1ehyA 294 2.53e+01 1ehyA c.69.1.11 34693 1allA 160 2.62e+01 1qgwC a.1.1.3 15647 1sedA 117 2.74e+01 a.219.1.1 105449 1veaA 148 2.85e+01 d.275.1.1 108529 2hddA 61 2.87e+01 2hddA a.4.1.1 15971 1xq8A 140 2.89e+01 1gqeA 365 2.90e+01 e.38.1.1 70351 1psrA 100 2.90e+01 1psrA a.39.1.2 17180 2sas 185 2.90e+01 2sas a.39.1.5 17258 1y74B 50 2.90e+01 1wpuA 147 2.91e+01 1wd6A 123 2.94e+01 3nul 130 2.95e+01 3nul d.110.1.1 40891 1czaN 917 3.04e+01 1qhaA c.55.1.3,c.55.1.3,c.55.1.3,c.55.1.3 33463,33464,33465,33466 1xmaA 145 3.08e+01 1hw1A 239 3.08e+01 1e2xA a.4.5.6,a.78.1.1 16111,18441 1hfoA 113 3.14e+01 d.80.1.3 61006 1wwzA 159 3.23e+01 1o70A 324 3.24e+01 b.118.1.1,b.118.1.1 81115,81116 1yyvA 131 3.25e+01 1cojA 212 3.30e+01 1avmA a.2.11.1,d.44.1.1 15737,38734 1v9nA 360 3.31e+01 2gh1A 301 3.33e+01 1tc6A 236 3.35e+01 d.122.1.1 106756 1g8pA 350 3.37e+01 1g8pA c.37.1.20 60376 1xnfA 275 3.39e+01 2g8yA 385 3.40e+01 1a32 88 3.45e+01 1a32 a.16.1.2 16384 1b4pA 217 3.48e+01 a.45.1.1,c.47.1.5 83158,83159 1yw4A 341 3.52e+01 1vmbA 140 3.54e+01 1a8y 367 3.55e+01 1a8y c.47.1.3,c.47.1.3,c.47.1.3 32781,32782,32783 1ta8A 332 3.60e+01 1rl0A 255 3.65e+01 1d5yA 292 3.73e+01 1d5yA a.4.1.8,a.4.1.8,d.60.1.2 16055,16056,39532 1cpcA 162 3.79e+01 1cpcA a.1.1.3 15643 1pvaA 110 3.89e+01 1a75A a.39.1.4 17207 1enh 54 3.91e+01 2hddA a.4.1.1 15973 1vggA 161 3.91e+01 1bo1A 416 3.92e+01 1bo1A d.143.1.2 41591 1zl8B 54 3.94e+01 1i50A 1733 3.95e+01 e.29.1.2 61754 2brcA 214 3.95e+01 1fthA 122 4.01e+01 d.150.1.2 60028 2ch4A 320 4.14e+01 1zoyC 140 4.23e+01 1io1A 398 4.23e+01 1io1A e.32.1.1 62611 1b8dA 164 4.26e+01 1cpcA a.1.1.3 15665 1el4A 195 4.31e+01 1ej3A a.39.1.5 59453 1oaoC 729 4.32e+01 e.26.1.3 86746 1qv1A 195 4.33e+01 a.39.1.5 96347 1zm0A 114 4.40e+01 1lswA 131 4.52e+01 d.110.3.2 78181 4crxA 322 4.52e+01 4crxA a.60.9.1,d.163.1.1 18095,42155 1y7rA 133 4.63e+01 2auaA 224 4.64e+01 1u0mA 382 4.66e+01 c.95.1.2,c.95.1.2 107557,107558 1fzcA 87 4.69e+01 1fzcA h.1.8.1 45590 1ofcX 304 4.72e+01 a.4.1.3,a.4.1.13,a.187.1.1 92826,92827,92828 1ef1C 90 4.81e+01 1ef1C a.137.5.1 19642 1zcbA 362 4.89e+01 1pysA 350 4.93e+01 1pysA d.104.1.1 40775 1fseA 74 4.95e+01 1fseA a.4.6.2 60000 1x6iA 91 5.04e+01 1qf6A 642 5.09e+01 1qf6A c.51.1.1,d.15.10.1,d.67.1.1,d.104.1.1 33210,39551,39562,40759 1lp8A 254 5.14e+01 d.165.1.1 91082 1n1jA 93 5.22e+01 a.22.1.3 79813 2bnmA 198 5.25e+01 1xo0A 324 5.26e+01 1iloA 77 5.27e+01 c.47.1.1 66205 2b3oA 532 5.29e+01 1xqiA 195 5.31e+01 1m8aA 70 5.43e+01 d.9.1.1 74579 2breA 219 5.46e+01 1ru3A 732 5.47e+01 e.26.1.3 97835 2d0oA 610 5.48e+01 1k9uA 78 5.53e+01 a.39.1.10 84348 1p68A 102 5.56e+01 k.8.1.1 94158 1y4oA 104 5.57e+01 1h6qA 168 5.63e+01 1h6qA b.88.1.2 60692 2cfxA 144 5.66e+01 1q02A 52 5.69e+01 a.5.2.1 95490 2al6A 375 5.74e+01 1jf2A 195 5.75e+01 1ej3A a.39.1.5 62930 1fvkA 189 5.75e+01 1fvkA c.47.1.13 90351 2ffjA 300 5.86e+01 1hfs 160 5.90e+01 1hfc d.92.1.11 40370 1gy8A 397 5.94e+01 c.2.1.2 83376 1bed 181 5.94e+01 1fvkA c.47.1.13 90330 1zpvA 91 5.95e+01 1gd0A 122 6.03e+01 1dptA d.80.1.3 39834 1feuA 206 6.05e+01 1feuA b.53.1.1 59801 2cg4A 152 6.11e+01 1hy7A 173 6.13e+01 d.92.1.11 65957 1s2xA 206 6.13e+01 a.47.3.1 105229 1x52A 124 6.14e+01 1i60A 278 6.15e+01 c.1.15.4 71118 1cpq 129 6.32e+01 1cpq a.24.3.2 16556 2go8A 122 6.36e+01 1hi2A 135 6.39e+01 7rsa d.5.1.1 61057 1ass 159 6.39e+01 1a6dA c.8.5.2 30818 1q5zA 177 6.40e+01 a.196.1.1 95954 1jmsA 381 6.50e+01 a.60.6.1,a.60.12.1,d.218.1.2 66889,75862,75863 1jggA 60 6.50e+01 2hddA a.4.1.1 62950 1xmeA 568 6.58e+01 1k2xA 177 6.62e+01 d.153.1.5 90929 2c4jA 218 6.63e+01 1lj2A 110 6.70e+01 h.1.13.2 73926 1s7zA 117 6.74e+01 a.159.3.1 98715 1no5A 114 6.88e+01 d.218.1.5 92014 1s3aA 102 6.90e+01 1twfA 1733 6.92e+01 1u3aA 189 6.97e+01 1xx0A 127 6.98e+01 1bt3A 345 6.99e+01 1bt3A a.86.1.2 18507 1n0uA 842 7.01e+01 b.43.3.1,c.37.1.8,d.14.1.1,d.58.11.1,d.58.11.1 79757,79758,79759,79760,79761 1u2wA 122 7.24e+01 1z5yE 149 7.27e+01 1lo7A 141 7.31e+01 d.38.1.1 74144 1xj4A 119 7.33e+01 2fbwC 141 7.40e+01 1w9yA 319 7.47e+01 1ppjE 196 7.57e+01 b.33.1.1,f.23.12.1 104260,104261 1rgeA 96 7.74e+01 1rgeA d.1.1.2 36028 1amx 180 7.77e+01 1amx b.2.3.1 22410 1t5oA 351 7.89e+01 c.124.1.5 106459 1ihoA 283 7.89e+01 1ihoA c.26.1.4 62390 2fxaA 207 7.94e+01 1yqyA 523 7.99e+01 2b95A 106 8.00e+01 1r71A 178 8.14e+01 a.4.14.1 104823 1w4vA 119 8.27e+01 1ly2A 130 8.31e+01 g.18.1.1,g.18.1.1 74335,74336 1d3yA 301 8.32e+01 1d3yA e.12.1.1 43252 1luzA 88 8.32e+01 b.40.4.5 74271 1dgnA 89 8.34e+01 1dgnA a.77.1.3 18436 1quuA 250 8.36e+01 1quuA a.7.1.1,a.7.1.1 16320,16321 1y01A 102 8.37e+01 1ghqB 134 8.42e+01 1ghqB g.18.1.1,g.18.1.1 60522,60523 1sglA 209 8.43e+01 d.124.1.1 105536 1vfgA 390 8.51e+01 a.173.1.1,d.218.1.4 108570,108571 1tzvA 142 8.52e+01 a.79.1.1 107526 2gnxA 365 8.58e+01 1mgrA 99 8.64e+01 d.1.1.2 79106 1tueB 218 8.78e+01 b.91.1.1 107324 2acaA 189 8.82e+01 1acvA 189 8.86e+01 1fvkA c.47.1.13 90328 2cb5A 453 8.98e+01 3gcb d.3.1.1 37035 1lniA 96 9.00e+01 d.1.1.2 74046